Locus 921

Sequence ID 2L_DroMel_CAF1
Location 2,649,549 – 2,649,707
Length 158
Max. P 0.999987
window1481 window1482 window1483

overview

Window 1

Location 2,649,549 – 2,649,667
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 90.76
Mean single sequence MFE -33.66
Consensus MFE -30.86
Energy contribution -30.06
Covariance contribution -0.80
Combinations/Pair 1.18
Mean z-score -3.12
Structure conservation index 0.92
SVM decision value 4.88
SVM RNA-class probability 0.999959
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2649549 118 - 22407834
UGAAAGUGCUAGUGGUGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCGCCCAAAGCAGCUCCGAAAGCAAUUCUUCAAGAAUUCAA
..(((((((.((.((.(((((((....((....))...))))))).)))).))))))).........(((((((...........)))))))......(.(((((.....)))))).. ( -26.60)
>DroSec_CAF1 70416 118 - 1
UGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACUCAAAGCAGCUCCGAAAGCAAUUCUUCGAGAAUUCAA
..(((((((.((.((((((((((....((....))...)))))))))))).)))))))..........((((((...........))))))((((((........)))).))...... ( -31.20)
>DroSim_CAF1 71459 118 - 1
UGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACUCAAAGCAGCUCCGAAAGCAAUUCUUCAAGAAUUCAA
..(((((((.((.((((((((((....((....))...)))))))))))).))))))).........(((((((...........)))))))......(.(((((.....)))))).. ( -30.70)
>DroEre_CAF1 78812 118 - 1
UGAAAGUGCUAGUGGGGAAAACCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGGCCACAAAAGUUGUUCCUCUACCCAAAACAGCUCCGAAGGCAGUUCUUCAAGAGUUCCA
..(((((((.((.((((((((((....((....))...)))))))))))).))))))).(((.....(((((((...........))))))).....))).................. ( -40.00)
>DroYak_CAF1 73861 118 - 1
UGAAAGUGCUAGUGGGGAAAAUCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGACCACAAAAGUGGUUCCUCUACCGAAAACAGCUCCGCAAGCAGUUUGUCAAGAAUUCAA
..(((((((.((.((((((((((....((....))...)))))))))))).)))))))((((((....))))))........((....((((.(....).))))..)).......... ( -39.80)
>consensus
UGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACCCAAAGCAGCUCCGAAAGCAAUUCUUCAAGAAUUCAA
..(((((((.((.((((((((((....((....))...)))))))))))).))))))).........(((((((...........)))))))......(.(((((.....)))))).. (-30.86 = -30.06 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,649,588 – 2,649,707
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -37.67
Consensus MFE -29.88
Energy contribution -31.88
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -3.16
Structure conservation index 0.79
SVM decision value 2.73
SVM RNA-class probability 0.996693
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2649588 119 + 22407834
GGAGGAACAACUAUUGUGGGUAAAGUGCGAGGGGGAAAACCUGACAUUCUUGAAUUGGUUUUCACCACUAGCACUUUCAAAUAUUGUGCUUCCACUACUUUGUCUCGAUACUGAACGAA
(((((.((((.((((....(.(((((((.((((.(((((((...((....))....))))))).)).)).)))))))).)))))))).)))))......((((.(((....))))))). ( -34.00)
>DroSec_CAF1 70455 119 + 1
GGAGGAACAACUAUUGUGGGUAAAGUGCGAGGAGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUAUGCUUCCACUACUUUGUCUCGGUUCUGAACGAA
(((((........((((((...((((((..((.((((((((...((....))....))))))))))....))))))))))))......)))))...........(((........))). ( -34.34)
>DroSim_CAF1 71498 119 + 1
GGAGGAACAACUAUUGUGGGUAAAGUGCGAGGAGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCGGUUCUAAACGAA
(((((.((((...((((((...((((((..((.((((((((...((....))....))))))))))....)))))))))))).)))).)))))...........(((........))). ( -37.80)
>DroEre_CAF1 78851 119 + 1
AGAGGAACAACUUUUGUGGCCAAAGUGCGAGGGGGAAAACCUGACAUUUCUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCAAUGCAGAAAGAU
...((((((...(((((((...((((((.((((((((((((...............)))))))))).)).)))))))))))))...)).)))).....(((((......)))))..... ( -41.16)
>DroYak_CAF1 73900 119 + 1
AGAGGAACCACUUUUGUGGUCAAAGUGCGAGGGGGAAAACCUGACAUUUCUGAAUUGAUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCAAUUCUGAUAGAG
...((((.(((.(((((((...((((((.((((((((((.(...............).)))))))).)).)))))))))))))..))).))))....(((((((........))))))) ( -41.06)
>consensus
GGAGGAACAACUAUUGUGGGUAAAGUGCGAGGGGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCGAUUCUGAACGAA
(((((.((((...((((((...((((((.((((((((((((...((....))....)))))))))).)).)))))))))))).)))).))))).......................... (-29.88 = -31.88 +   2.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,649,588 – 2,649,707
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 90.67
Mean single sequence MFE -37.36
Consensus MFE -35.48
Energy contribution -35.56
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -3.28
Structure conservation index 0.95
SVM decision value 5.45
SVM RNA-class probability 0.999987
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2649588 119 - 22407834
UUCGUUCAGUAUCGAGACAAAGUAGUGGAAGCACAAUAUUUGAAAGUGCUAGUGGUGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCC
.............(..((((....((((.....((.....))(((((((.((.((.(((((((....((....))...))))))).)))).)))))))..)))).....))))..)... ( -28.90)
>DroSec_CAF1 70455 119 - 1
UUCGUUCAGAACCGAGACAAAGUAGUGGAAGCAUAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCC
.............(..((((....((((..(((.....))).(((((((.((.((((((((((....((....))...)))))))))))).)))))))..)))).....))))..)... ( -35.20)
>DroSim_CAF1 71498 119 - 1
UUCGUUUAGAACCGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCC
.............(..((((....((((...(((.....)))(((((((.((.((((((((((....((....))...)))))))))))).)))))))..)))).....))))..)... ( -36.40)
>DroEre_CAF1 78851 119 - 1
AUCUUUCUGCAUUGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGGCCACAAAAGUUGUUCCUCU
.............(((((((....(((....)))..(((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...))))))..))))..))). ( -42.30)
>DroYak_CAF1 73900 119 - 1
CUCUAUCAGAAUUGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAAUCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGACCACAAAAGUGGUUCCUCU
(((..........))).......((.((((.(((..(((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...)))))).))).)))).)) ( -44.00)
>consensus
UUCGUUCAGAAUCGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCC
.............(..((((....((((...(((.....)))(((((((.((.((((((((((....((....))...)))))))))))).)))))))..)))).....))))..)... (-35.48 = -35.56 +   0.08)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:46 2006